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A survey of deep learning methods on cell instance segmentation

Neural Computing and Applications 2025年 1-70页

作者： Wang, Ching-Wei Lee, Wei-Tang Su, Ting-Sheng Graduate Institute of Biomedical Engineering National Taiwan University of Science and Technology Taipei Taiwan

Cell segmentation is a key topic in medical image analysis with a wide range of applications in the study of diagnosis and prognosis of pathology and cytology. Along with the recent development of generative adversarial networks and transformers, there has been a substantial amount of work aimed at developing cell segmentation approaches using deep learning (DL) models. Inspired by this transition, in this survey, we provide a comprehensive review of the current situation and future technology development in cell instance segmentation by systematically reviewing 198 research papers, covering a broad spectrum of models for instance-level cell segmentation from 2020 to 2024, including convolutional networks, encoder–decoder architectures, recurrent networks, transformers and generative adversarial models. We have examined the loss functions, training strategies, evaluation methods, widely used datasets and quantitative performance of individual methods. A comprehensive summary of the selected seminal works on DL-based cell segmentation with microscopic images is further provided to investigate the effectiveness of methods. We have also performed a comparative analysis on two challenging cell instance segmentation datasets with technical challenges, including unclear cell boundaries, clustered or overlapping cells, variations in cell appearance and sparse or missing annotations, utilizing 18 state-of-the-art DL approaches in cell instance segmentation. Finally, we described the strengths and challenges of the cell instance segmentation models with discussions on future research directions in this area. © The Author(s) 2025.

关键词： Image segmentation

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The development of video laryngoscope via additive manufacturing for use in a pre-hospital environment

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Research on biomedical engineering 2024年第1期40卷 15-23页

作者： Alves, Marcio Allan Foggiatto, Jose Aguiomar Berti, Lucas Freitas Ulbricht, Leandra Graduate Program in Biomedical Engineering Universidade Federal Tecnológica do Paraná Curitiba Brazil Graduate Program in Mechanical and Materials Engineering Universidade Federal Tecnológica do Paraná Curitiba Brazil

Purpose: Due to failures that occur during intubation, some authors advocate that intubation should always be done with a video laryngoscope. What makes the implementation of this recommendation difficult, especially in developing countries, is the high price of the device. Thus, the objective of this study is to present a low-cost video laryngoscope developed via additive manufacturing, being the first device to have the safety parameters duly tested according to the ISO 7673:2020 standard. Methods: A video laryngoscope with a Macintosh-type rigid blade was developed. After modeling it in the CAD-3D SolidWorks® program, the prototype was printed in PLA (polylactic acid), and load and fatigue tests were carried out with the MTS 810/793 testing machine. Results: The main results were an improvement in ergonomics (with a better fixation of the camera wire and camera positioning). Load and fatigue tests showed compliance with the requirements of the ISO 7673:2020 standard. The first is that when subjected to a traction force of 65 N, the center of illumination must not move more than 10 mm (the average movement was only 3.95 mm). The second is that when subjected to a traction force of 150 N, the laryngoscope blade must not break (348 N of load was applied and the piece resisted without breaking). Conclusion: It was shown that the Macintosh-type PLA video laryngoscope has the potential to become a safe and low-cost tool in the emergency intubation arsenal. © The Author(s), under exclusive licence to The Brazilian Society of biomedical engineering 2023.

关键词： 3D printing

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Fourier-Based Fast 3-D Ultrasound Imaging Using Row-Column-Addressed 2-D Arrays

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IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control 2024年第1期71卷 85-101页

作者： Lin, Shang-Ching Li, Pai-Chi Graduate Institute of Biomedical Electronics and Bioinformatics National Taiwan University Taipei10617 Taiwan National Taiwan University Graduate Institute of Biomedical Electronics and Bioinformatics The Department of Electrical Engineering Taipei10617 Taiwan

A Fourier-based fast 3-D ultrasound imaging method using row-column-addressed (RCA) 2-D arrays is presented. The row elements in an RCA array are activated sequentially, and all the column elements are used to receive. The obtained dataset is adapted to approximate to that obtained using a fully sampled array after a plane wave at a given incident angle is transmitted. In this way, the fast algorithm in plane-wave Fourier imaging (PWFI) can be applied to the adapted dataset. In addition, synthesizing multiple datasets based on multiple incident angles enables angular compounding, which improves the image quality. The proposed method was validated using computer simulations and physical-phantom experiments. The results show that the spatial resolution and contrast of the proposed method are comparable with those of its PWFI counterpart without requiring a fully sampled (FS) array. Compared with the delay-and-sum (DAS) method using the RCA array, the proposed method provides comparable spatial resolution but lower contrast;however, the computational complexity is significantly reduced from O(N4Nz) to O(WN2Nz log2 (N2Nz)), where N is the number of elements on each side of the RCA array, Nz is the number of voxels in the axial direction in the output image, and W is the number of compounding angles. For example, in the simulated results when the maximum compounding angle M is 5°, at a given point the lateral - 6-dB width provided by the proposed method is 0.241 mm (0.267 mm for DAS), the contrast ratio of a hyperechoic cyst is 8.87 dB (9.10 dB for DAS), the number of real number operations is reduced by a factor of 20.62, and the number of memory accesses is reduced by a factor of 47.21, both compared with DAS. This novel fast algorithm could facilitate the development of compact real-time 3-D imaging systems, especially when the channel count is high and a large field of view (FOV) is required. © 1986-2012 IEEE.

关键词： Ultrasonic imaging

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Assessing Hemodynamic Changes in Cerebral Aneurysms Post Coil Embolization: A Preliminary Investigation

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Journal of engineering and Science in Medical Diagnostics and Therapy 2025年第3期8卷 031014页

作者： Monfared, Mohammadali Hollingsworth, Luke Gamage, Peshala Thibbotuwawa Taebi, Amirtaha Biomedical Engineering Program Mississippi State University Mississippi StateMS39762 United States Department of Biomedical Engineering and Science Florida Institute of Technology MelbourneFL32901 United States

A cerebral aneurysm is a weakened area in the wall of a blood vessel within the brain that causes the vessel to bulge outwards. The choice of treatment depends on various factors including the size and location of the aneurysm and the risk of rupture, and should be tailored to individual situations rather than following a universal approach due to their variability among individuals. This approach provides the possibility of choosing precise treatment plans that are proper for each patient's circumstances. The utilization of computational fluid dynamics (CFD) allows for the prediction of after-surgery hemodynamic changes before any surgical approach. The goal of this research was to investigate the flow characteristics and hemodynamic parameters in cerebral arteries before and after endovascular embolization treatments using CFD in three patient-specific geometries with at least one aneurysm at the middle cerebral artery's bifurcation. To model the coiling, the computational domain was divided into two fluid domains, a general fluid domain consisting of the parent arteries and a porous domain inside the aneurysm. CFD modeling was conducted to simulate blood flow in pre- and postcoiling scenarios. Results showed that the coiling model with different porosity values led to a redirection of blood flow away from the aneurysm sac. Additionally, changes in shear stress indicated potential alterations in susceptibility to vascular remodeling. In conclusion, these findings indicated that utilizing CFD modeling for simulating blood flow in patient-specific cerebral arteries could be utilized to predict hemodynamic parameters before any treatment. Copyright © 2025 by ASME.

关键词： Computational fluid dynamics

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Features of Computerized Systems for the Management of Medical-Hospital Equipment in Clinical engineering Departments in Brazil 9th

Features of Computerized Systems for the Management of Medic...

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9th Latin American Congress on biomedical engineering, CLAIB 2022 and 28th Brazilian Congress on biomedical engineering, CBEB 2022

作者： Rosa, Perseu Filho Barros, Frieda Saicla Graduate Program in Biomedical Engineering Federal Technological University of Paraná Curitiba Brazil

ISBN: (纸本)9783031494093

The rapid evolution and complexity of medical-hospital equipment (EMH), as well as the appearance of adverse events that had not occurred until then, resulted, in the United States, in the emergence of the area of activity called Clinical engineering (CE). In Brazil, although the profession does not have its proper recognition and regulation, the need for a qualified and designated professional to manage health technologies, within a Health Care Facility (EAS), has been increasingly evident. To manage these technologies, in addition to being mandatory, is the responsibility of each Hospital, requiring dedication and control. The use of computerized systems (SI), aiming at successful management of health technologies, including the preparation of inventories and control of technical intervention events (e.g., maintenance), has been consolidated. Despite having available in the market diversified software intended for the realization of maintenance management, notoriously, the foundation, structuring and functionality of these, are convergent. The present work aimed to list, through bibliographic references, parameters and essential functions, which should make up an SI for the management of EMH, applied in the Departments of CE in Hospital Units. Thus, through the study carried out, it was observed that a software for this purpose can be divided into four main modules: Module of registrations, EMH inventory, service orders (maintenance) and, reports/indicators. Finally, given the functionalities identified in the analyzed SI, it is suggested to conduct new studies related to the incorporation of specific tools and functionalities, aimed at CE in Brazil. © 2024, The Author(s), under exclusive license to Springer Nature Switzerland AG.

关键词： Hospitals

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CHITOSAN-COLLAGEN COMPOSITE SCAFFOLDS FOR GROWTH DIRECTION GUIDANCE OF PC12 AXONS

CHITOSAN-COLLAGEN COMPOSITE SCAFFOLDS FOR GROWTH DIRECTION G...

引用

ASME 2024 International Design engineering Technical Conferences and Computers and Information in engineering Conference, IDETC-CIE 2024

作者： Tsai, Po-Yu Lin, Ying-Ting Wang, Gou-Jen Graduate Institute of Biomedical Engineering National Chung-Hsing University Taichung Taiwan PhD Program in Tissue Engineering and Regenerative Medicine National Chung-Hsing University Taichung Taiwan Department of Mechanical Engineering Graduate Institute of Biomedical Engineering National Chung-Hsing University Taichung Taiwan

ISBN: (纸本)9780791888421

In this study, nerve conduits of chitosan and collagen composites with biocompatibility and biodegradability were fabricated. The effects of material composition and surface morphology on the axonal growth and directionality of rat epinephric pheochromocytoma PC12 were investigated. The cells were separated by a PDMS structure to simulate nerve injury, and the growth of axons of PC12 cells was observed under the separation of large gaps. At the same time, mitochondria extracted from osteosarcoma cybrid cells (C2-GFP) were added to the culture to investigate the effect of healthy mitochondria on axon differentiation and growth. The experimental results showed that the chitosan-collagen composite film can promote the growth of PC12 axons more effectively than the pure chitosan film. Cell culture results at different groove widths also showed that smaller grooves resulted in more axon numbers and longer axon lengths. Nerve injury simulation experiments showed that the nerve repair could be almost completed after 12 days of culture. Copyright © 2024 by ASME.

关键词： Mitochondria

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Compact Model Build Upon Dynamic Weighting Artificial Neural Network Approach for Complementary Field Effect Transistors

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IEEE Transactions on Electron Devices 2024年第1期71卷 246-253页

作者： Butola, Rajat Li, Yiming Kola, Sekhar Reddy National Yang Ming Chiao Tung University Parallel and Scientific Computing Laboratory Electrical Engineering and Computer Science International Graduate Program Hsinchu300093 Taiwan Institute of Pioneer Semiconductor Innovation The Institute of Artificial Intelligence Innovation National Yang Ming Chiao Tung University Parallel and Scientific Computing Laboratory Electrical Engineering and Computer Science International Graduate Program The Institute of Communications Engineering the Institute of Biomedical Engineering Department of Electronics and Electrical Engineering Hsinchu300093 Taiwan

In this work, a dynamic weighting-artificial neural network (DW-ANN) methodology is presented for quick and automated compact model (CM) generation. It takes advantage of both TCAD simulations for high accuracy and SPICE simulations for cost-effectiveness. This methodology is developed for gate-all-around (GAA) silicon (Si) nanosheet (NS) complementary field effect transistor (CFET), a potential candidate for future CMOS technology due to its innate properties. The critical process variation (PV) sources that severely degrade the CFET performance are estimated using DW-ANN. It reduces the computation cost and predicts the effects of PV sources with less than 1% error. Furthermore, a compact DW-ANN-based Verilog-A model has been developed that captures the dc as well as transient behavior accurately for circuit-level analysis. CFET-based circuits such as inverter, 6T-static random access memory (SRAM), and ring oscillator (RO) are characterized and implemented using DW-ANN-based CM. The overall average error of the model is reported as less than 2%. Therefore, the proposed device and circuit modeling approach provides a feasible solution for the rapid compact modeling of new emerging devices with good convergence and high accuracy. © 1963-2012 IEEE.

关键词： Neural networks

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Synthesis of Methotrexate-Loaded Dumbbell-Shaped Titanium Dioxide/Gold Nanorods Coated with Mesoporous Silica and Decorated with Upconversion Nanoparticles for Near-Infrared-Driven Trimodal Cancer Treatment

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ACS Applied Materials and Interfaces 2023年第28期15卷 33335-33347页

作者： Dash, Pranjyan Thirumurugan, Senthilkumar Tseng, Ching-Li Lin, Yu-Chien Chen, Sung-Lung Dhawan, Udesh Chung, Ren-Jei Taipei10608 Taiwan Graduate Institute of Biomedical Materials and Tissue Engineering College of Biomedical Engineering Taipei Medical University Taipei110 Taiwan International Ph.D. Program in Biomedical Engineering College of Biomedical Engineering Taipei Medical University Taipei110 Taiwan Research Center of Biomedical Device College of Biomedical Engineering Taipei Medical University Taipei110 Taiwan International Ph.D. Program in Cell Therapy and Regenerative Medicine College of Medicine Taipei Medical University Taipei110 Taiwan Centre for the Cellular Microenvironment Division of Biomedical Engineering James Watt School of Engineering Mazumdar-Shaw Advanced Research Centre University of Glasgow GlasgowG116EW United Kingdom Taipei10608 Taiwan

This study prepared dumbbell-shaped titanium dioxide (TiO2)/gold nanorods (AuNRs) coated with mesoporous silica shells (mS) (AuNRs-TiO2@mS). Methotrexate (MTX) was further loaded into the AuNRs-TiO2@mS, and then upconversion nanoparticles (UCNPs) were decorated to form AuNRs-TiO2@mS-MTX: UCNP nanocomposites. TiO2 is used as an intense photosensitizer (PS) to produce cytotoxic reactive oxygen species (ROS), leading to photodynamic therapy (PDT). Concurrently, AuNRs exhibited intense photothermal therapy (PTT) effects and photothermal conversion efficiency. In vitro results suggested that these nanocomposites can kill oral cancer cells (HSC-3) without toxicity through irradiation of NIR laser, owing to the synergistic effect. The in vivo studies indicated that these nanocomposites exhibited excellent antitumor effects through synergistic PDT/PTT/chemotherapy under a near-infrared (NIR) 808 nm laser irradiation. Thus, these AuNRs-TiO2@mS: UCNP nanocomposites have great potential to undergo deep tissue penetration with enhanced synergistic effects through NIR-triggered light for cancer treatment. © 2023 American Chemical Society

关键词： Titanium dioxide

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A Novel SERS Substrate Containing Silver Nanoparticle-Deposited Photoresist Microcone Array for Sensitive Biosensing

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IEEE Sensors Journal 2024年第2期24卷 1398-1404页

作者： Lin, Ying-Ting Wang, Sheng-Hsiang Tseng, Yu-Hsin Lin, Ze-Cheng Chen, Jyun-Tu Chang, Cheng-Chung Wang, Gou-Jen National Chung Hsing University Program in Tissue Engineering and Regenerative Medicine Taichung40227 Taiwan National Chung Hsing University Department of Mechanical Engineering Taichung40227 Taiwan Graduate Institute of Biomedical Engineering National Chung Hsing University Taichung40227 Taiwan

In this study, we developed a novel surface-enhanced Raman scattering (SERS) substrate formed by depositing silver nanoparticles (AgNPs) on a silver thin film-coated photoresist (PR) microcone array. The semiconductor photolithographic process was adopted for fabricating the PR microcone array. The hotspot enhancement effect of the SERS substrates was optimized by adjusting the concentration of the trisodium citrate, which was used as a reducing agent and a stabilizing agent for the synthesis of AgNPs. Experimental results showed that the proposed SERS substrate could detect the indicating peaks of Rhodamine 6G (R6G) at a relatively low concentration of 10-12 M. A standard detection curve for HbA1c detection with a linear detection range of 5000-20000 ng/mL with good linearity of 0.994 and a limit of detection (LOD) of 850.2 ng/mL was further established by adding HbA1c agent to artificial blood to simulate a real environmental condition. Recovery rate detection experiments confirmed the reproducibility of the established standard detection curve. © 2001-2012 IEEE.

关键词： Silver nanoparticles

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Point-of-care testing of Procalcitonin using lateral flow assay 46

Point-of-care testing of Procalcitonin using lateral flow as...

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46th Annual International Conference of the IEEE engineering in Medicine and Biology Society, EMBC 2024

作者： Deodhar, Jovita Rajesh Zhang, Chengchen Guo, Tianruo Xue, Ruier Shivdasani, Mohit N. Deng, Fei Unsw Graduate School of Biomedical Engineering Tyree Institute of Health Engineering SydneyNSW2052 Australia

ISBN: (纸本)9798350371499

This study presents a novel gold nano shells (GNS)-assisted paper-based lateral flow assay (LFA) for the detection of procalcitonin (PCT). PCT is a biomarker of infection, originating from the C cells of the thyroid gland and functioning as a precursor to the hormone calcitonin. Its concentration in the blood is known to increase in line with the progression of infectious diseases. Conventional techniques for assessing PCT levels in the blood encompass culture-based methods, enzyme-linked immunosorbent assay (ELISA) and electrochemical immunoassays. These methods are characterized by either prolonged processing times, high costs, or dependence on laboratory infrastructure. These limitations hinder their practical implementation in point-of-care settings. As a result, the development of a LFA for detecting PCT levels proves to be well-suited for point-of-care settings, serving as a valuable diagnostic tool for infectious diseases. This study focuses on comparing the efficacy of GNS and gold nanoparticle (GNP)-assisted lateral flow assays (LFA) to ascertain the lower limit of detection (LOD) for PCT and assess their overall reliability. Our findings indicate that GNS-assisted LFA achieved a lower LOD of 1 ng/mL, surpassing GNP, which exhibited a LOD of 5 ng/mL. Furthermore, outstanding specificity was demonstrated and clinical application capability in human serum was confirmed, reinforcing its efficacy as a reliable *** Relevance - GNS-assisted LFA provides a simple, rapid, and cost-effective method for detecting PCT levels from clinical samples © 2024 IEEE.

关键词： Gold nanoparticles

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